Presentation on theme: "C. elegans was the first animal to have its genome (10 8 bp) completely sequenced."— Presentation transcript:
C. elegans was the first animal to have its genome (10 8 bp) completely sequenced.
C. elegans Genome in Numbers Size (Mb) Protein genes Protein genes/kb Coding Regions (%) % of genes EST matches (Mb) 95.53 19,141 4.9827 38.9 The completed genome sequence is made up of 2,527 cosmids 113 fosmids 257 YACs 44 long range PCR products intergenic DNA 47% exonic DNA 27% intronic DNA 26% http://nema.cap.ed.ac.uk/Caenorhabditis/C_elegans.html
Characteristics of the Caenorhabditis elegans genome Seq GenesEST’s Lev Inv. Rep. Tand Rep Telom The C. elegans genome consortium, TIG 15:51, 1999
The study of many aspects of Nematode biology were made easier after the genome of C. elegans was sequenced After doing “discovery science” (L. Hood, 2002; “defining the elements in biological objects”) we can do regular “hypothesis-driven” science.
Outron Transplicing and operons in C. elegans Blumenthal, T. (1998) - BioEssays 20:480-487.
Banerjee & Slack BioEssays, 24:119, 2002 Involvement of small RNAs in the control of Temporal development and RNAi in C. elegans
24h 48h 72h 96h Bacteria with no plasmid Kamath e cols. (2001) Genome Biol. 2:1-10 Feeding C. elegans with dsRNA turns off specific genes
Other nematodes help define what is common to all species and what is restricted to C. elegans at the molecular level
Made by R. Turner Department of Biology, 1990 - Indiana University CEW1C. elegans Anterior Left side SEM of CEW1 and C. elegans
Although the final morphology is the same, the induction events during vulva development are difrerent in C. elegans and CEW1 Dichtel et al., Genetics, 157:183, 2001
CEW1 Transplicing in C. elegans and CEW1 From Evans et al., PNAS 94:9751, 1997
Introns of the C. elegans vitellogenin genes Winter, in: “Reproductive Biology of Invertebrates,Volume XII” - 2002
NJ-Tree of nematode vitellogenins (aminoacid sequences) Winter, in: “Reproductive Biology of Invertebrates,Volume XII” - 2002
N- and C-terminus of nematode VTG evolve at different rates Winter et al., Mol. Biol. Evol., 13:674, 1996
CUU CUC CUA CUG 51 24 39 55 1 2 0 12 CCA CCC 1 99 64 9 85 17 15 83 CAA CAG GAU GAC 50 23 77 Ce CEW1 Ce CEW1 Ce CEW1 Codon usage table of vit-6 genes in C. elegans and CEW1 Winter et al., Mol. Biol. Evol., 13:674, 1996
Acknowledgements Dr Cristiane Penha-Scarabotto Dr Rubens Nobumoto Akamine Joselene Pereira de Moura Il-Young Ahn Juliana Machado Andreoni Paulo Afonso de Carvalho Daniela Peres Almenara Manoel Aparecido Peres SUPPORTED BY & Undergraduate students
“... We found that bringing together the true cross- disciplinary scientists was rendered difficult by the fact that our academic center, and most academic centers, live in a world of departments. And the departments tend to create barriers both in how their students are educated and what the expectations are for faculty...” Leroy Hood, JAN/18/2002 [see http://www.oreillynet.com/pub/a/network/2002/01/18/hood.html] http://www.oreillynet.com/biocon2002/?xA;
Wormbase How are the genome sequences of C. elegans stored Published in: http://nema.cap.ed.ac.uk/Caenorhabditis/C_elegans_genome/Celegansinformatics.html